data_6W3L # _model_server_result.job_id EUJS1YPH2whF-85EbouAUw _model_server_result.datetime_utc '2024-10-22 03:24:17' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 6w3l # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"H","auth_seq_id":401}' # _entry.id 6W3L # _exptl.entry_id 6W3L _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 62.068 _entity.id 7 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 1,2-ETHANEDIOL _entity.pdbx_number_of_molecules 1 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 110.267 _cell.angle_gamma 90 _cell.entry_id 6W3L _cell.length_a 71.371 _cell.length_b 65.196 _cell.length_c 91.258 _cell.Z_PDB 4 _cell.pdbx_unique_axis ? # _symmetry.entry_id 6W3L _symmetry.cell_setting ? _symmetry.Int_Tables_number 4 _symmetry.space_group_name_Hall 'P 2yb' _symmetry.space_group_name_H-M 'P 1 21 1' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA tetrameric 4 author_and_software_defined_assembly 1 PISA monomeric 1 author_and_software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,E,F,G,J,K,M 1 1 D,H,I,L 2 1 # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1 _pdbx_struct_oper_list.matrix[1][2] 0 _pdbx_struct_oper_list.matrix[1][3] 0 _pdbx_struct_oper_list.matrix[2][1] 0 _pdbx_struct_oper_list.matrix[2][2] 1 _pdbx_struct_oper_list.matrix[2][3] 0 _pdbx_struct_oper_list.matrix[3][1] 0 _pdbx_struct_oper_list.matrix[3][2] 0 _pdbx_struct_oper_list.matrix[3][3] 1 _pdbx_struct_oper_list.vector[1] 0 _pdbx_struct_oper_list.vector[2] 0 _pdbx_struct_oper_list.vector[3] 0 # _struct_asym.details ? _struct_asym.entity_id 7 _struct_asym.id H _struct_asym.pdbx_modified N _struct_asym.pdbx_blank_PDB_chainid_flag N # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order covale ? covale1 B O3' DG 9 D DG 9 1_555 B P C7R 10 D C7R 10 1_555 ? ? ? ? A ? ? ? ? ? ? ? 1.601 ? covale ? covale2 B O3' DG 9 D DG 9 1_555 B P C7R 10 D C7R 10 1_555 ? ? ? ? B ? ? ? ? ? ? ? 1.604 ? metalc ? metalc1 B OP2 DC 8 D DC 8 1_555 F CA CA . D CA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.197 ? metalc ? metalc2 C O5' DG 1 E DG 1 1_555 G NA NA . E NA 101 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.919 ? metalc ? metalc3 D OG SER 24 A SER 66 1_555 I NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 3.196 ? metalc ? metalc4 D OE1 GLN 53 A GLN 95 1_555 I NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.633 ? metalc ? metalc5 D OD2 ASP 241 A ASP 283 1_555 I NA NA . A NA 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.279 ? hydrog 'DT-DA PAIR' hydrog1 A N3 DT 1 C DT 1 1_555 C N1 DA 11 E DA 11 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog2 A N3 DC 2 C DC 2 1_555 C N1 DG 10 E DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog3 A N4 DC 2 C DC 2 1_555 C O6 DG 10 E DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog4 A O2 DC 2 C DC 2 1_555 C N2 DG 10 E DG 10 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DT MISPAIR' hydrog5 A N1 DG 3 C DG 3 1_555 C O4 DT 8 E DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog6 A N2 DG 3 C DG 3 1_555 C N3 DC 9 E DC 9 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog7 A N1 DA 4 C DA 4 1_555 C N3 DT 8 E DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog8 A N6 DA 4 C DA 4 1_555 C O4 DT 8 E DT 8 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog9 A N1 DG 6 C DG 6 1_555 C N3 DC 6 E DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog10 A N2 DG 6 C DG 6 1_555 C O2 DC 6 E DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog11 A O6 DG 6 C DG 6 1_555 C N4 DC 6 E DC 6 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DG-DC PAIR' hydrog12 A O6 DG 7 C DG 7 1_555 C N4 DC 5 E DC 5 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog13 A N1 DA 8 C DA 8 1_555 C N3 DT 4 E DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog14 A N6 DA 8 C DA 8 1_555 C O4 DT 4 E DT 4 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog15 A N3 DT 9 C DT 9 1_555 C N1 DA 3 E DA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog16 A O4 DT 9 C DT 9 1_555 C N6 DA 3 E DA 3 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog17 A N3 DC 10 C DC 10 1_555 C N1 DG 2 E DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog18 A N4 DC 10 C DC 10 1_555 C O6 DG 2 E DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog19 A O2 DC 10 C DC 10 1_555 C N2 DG 2 E DG 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog 'DC-DG PAIR' hydrog20 A N3 DC 11 C DC 11 1_555 C N2 DG 1 E DG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog21 B N1 DG 1 D DG 1 1_555 C N3 DC 21 E DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog22 B N2 DG 1 D DG 1 1_555 C O2 DC 21 E DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog23 B O6 DG 1 D DG 1 1_555 C N4 DC 21 E DC 21 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog24 B N3 DC 2 D DC 2 1_555 C N1 DG 20 E DG 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog25 B N4 DC 2 D DC 2 1_555 C O6 DG 20 E DG 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog26 B O2 DC 2 D DC 2 1_555 C N2 DG 20 E DG 20 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog27 B N3 DT 3 D DT 3 1_555 C N1 DA 19 E DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog28 B O4 DT 3 D DT 3 1_555 C N6 DA 19 E DA 19 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog29 B N1 DG 4 D DG 4 1_555 C N3 DC 18 E DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog30 B N2 DG 4 D DG 4 1_555 C O2 DC 18 E DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog31 B O6 DG 4 D DG 4 1_555 C N4 DC 18 E DC 18 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog32 B N1 DA 5 D DA 5 1_555 C N3 DT 17 E DT 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog33 B N6 DA 5 D DA 5 1_555 C O4 DT 17 E DT 17 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog34 B N3 DT 6 D DT 6 1_555 C N1 DA 16 E DA 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog35 B O4 DT 6 D DT 6 1_555 C N6 DA 16 E DA 16 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog36 B N1 DG 7 D DG 7 1_555 C N3 DC 15 E DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog37 B N2 DG 7 D DG 7 1_555 C O2 DC 15 E DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog38 B O6 DG 7 D DG 7 1_555 C N4 DC 15 E DC 15 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog39 B N3 DC 8 D DC 8 1_555 C N1 DG 14 E DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog40 B N4 DC 8 D DC 8 1_555 C O6 DG 14 E DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog41 B O2 DC 8 D DC 8 1_555 C N2 DG 14 E DG 14 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog42 B N1 DG 9 D DG 9 1_555 C N3 DC 13 E DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog43 B N2 DG 9 D DG 9 1_555 C O2 DC 13 E DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? hydrog WATSON-CRICK hydrog44 B O6 DG 9 D DG 9 1_555 C N4 DC 13 E DC 13 1_555 ? ? ? ? ? ? ? ? ? ? ? ? ? ? # _chem_comp.formula 'C2 H6 O2' _chem_comp.formula_weight 62.068 _chem_comp.id EDO _chem_comp.mon_nstd_flag . _chem_comp.name 1,2-ETHANEDIOL _chem_comp.type non-polymer _chem_comp.pdbx_synonyms 'ETHYLENE GLYCOL' # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 O1 EDO sing 267 n n C1 C2 EDO sing 268 n n C1 H11 EDO sing 269 n n C1 H12 EDO sing 270 n n O1 HO1 EDO sing 271 n n C2 O2 EDO sing 272 n n C2 H21 EDO sing 273 n n C2 H22 EDO sing 274 n n O2 HO2 EDO sing 275 n n # _atom_sites.entry_id 6W3L _atom_sites.fract_transf_matrix[1][1] 0.014011 _atom_sites.fract_transf_matrix[1][2] 0 _atom_sites.fract_transf_matrix[1][3] 0.005174 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.015338 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.011681 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code F 5 CA D 1 101 93 CA CA . G 6 NA E 1 101 101 NA NA . H 7 EDO A 1 401 401 EDO EDO . I 6 NA A 1 402 402 NA NA . J 8 HOH D 1 201 22 HOH HOH . J 8 HOH D 2 202 67 HOH HOH . J 8 HOH D 3 203 66 HOH HOH . J 8 HOH D 4 204 49 HOH HOH . J 8 HOH D 5 205 65 HOH HOH . K 8 HOH E 1 201 30 HOH HOH . K 8 HOH E 2 202 63 HOH HOH . K 8 HOH E 3 203 69 HOH HOH . L 8 HOH A 1 501 2 HOH HOH . L 8 HOH A 2 502 59 HOH HOH . L 8 HOH A 3 503 40 HOH HOH . L 8 HOH A 4 504 7 HOH HOH . L 8 HOH A 5 505 45 HOH HOH . L 8 HOH A 6 506 17 HOH HOH . L 8 HOH A 7 507 21 HOH HOH . L 8 HOH A 8 508 12 HOH HOH . L 8 HOH A 9 509 75 HOH HOH . L 8 HOH A 10 510 4 HOH HOH . L 8 HOH A 11 511 11 HOH HOH . L 8 HOH A 12 512 6 HOH HOH . L 8 HOH A 13 513 9 HOH HOH . L 8 HOH A 14 514 24 HOH HOH . L 8 HOH A 15 515 33 HOH HOH . L 8 HOH A 16 516 17 HOH HOH . L 8 HOH A 17 517 61 HOH HOH . L 8 HOH A 18 518 43 HOH HOH . L 8 HOH A 19 519 44 HOH HOH . L 8 HOH A 20 520 20 HOH HOH . L 8 HOH A 21 521 42 HOH HOH . L 8 HOH A 22 522 58 HOH HOH . L 8 HOH A 23 523 48 HOH HOH . L 8 HOH A 24 524 62 HOH HOH . L 8 HOH A 25 525 15 HOH HOH . L 8 HOH A 26 526 3 HOH HOH . L 8 HOH A 27 527 52 HOH HOH . L 8 HOH A 28 528 36 HOH HOH . L 8 HOH A 29 529 28 HOH HOH . L 8 HOH A 30 530 19 HOH HOH . L 8 HOH A 31 531 3 HOH HOH . L 8 HOH A 32 532 80 HOH HOH . L 8 HOH A 33 533 8 HOH HOH . L 8 HOH A 34 534 1 HOH HOH . L 8 HOH A 35 535 72 HOH HOH . L 8 HOH A 36 536 78 HOH HOH . L 8 HOH A 37 537 77 HOH HOH . L 8 HOH A 38 538 27 HOH HOH . L 8 HOH A 39 539 79 HOH HOH . L 8 HOH A 40 540 18 HOH HOH . L 8 HOH A 41 541 76 HOH HOH . L 8 HOH A 42 542 88 HOH HOH . M 8 HOH B 1 401 50 HOH HOH . M 8 HOH B 2 402 23 HOH HOH . M 8 HOH B 3 403 19 HOH HOH . M 8 HOH B 4 404 5 HOH HOH . M 8 HOH B 5 405 53 HOH HOH . M 8 HOH B 6 406 31 HOH HOH . M 8 HOH B 7 407 1 HOH HOH . M 8 HOH B 8 408 51 HOH HOH . M 8 HOH B 9 409 57 HOH HOH . M 8 HOH B 10 410 5 HOH HOH . M 8 HOH B 11 411 22 HOH HOH . M 8 HOH B 12 412 38 HOH HOH . M 8 HOH B 13 413 39 HOH HOH . M 8 HOH B 14 414 12 HOH HOH . M 8 HOH B 15 415 20 HOH HOH . M 8 HOH B 16 416 26 HOH HOH . M 8 HOH B 17 417 37 HOH HOH . M 8 HOH B 18 418 55 HOH HOH . M 8 HOH B 19 419 10 HOH HOH . M 8 HOH B 20 420 13 HOH HOH . M 8 HOH B 21 421 7 HOH HOH . M 8 HOH B 22 422 13 HOH HOH . M 8 HOH B 23 423 83 HOH HOH . M 8 HOH B 24 424 92 HOH HOH . M 8 HOH B 25 425 9 HOH HOH . M 8 HOH B 26 426 2 HOH HOH . M 8 HOH B 27 427 60 HOH HOH . M 8 HOH B 28 428 10 HOH HOH . M 8 HOH B 29 429 21 HOH HOH . M 8 HOH B 30 430 46 HOH HOH . M 8 HOH B 31 431 14 HOH HOH . M 8 HOH B 32 432 14 HOH HOH . M 8 HOH B 33 433 25 HOH HOH . M 8 HOH B 34 434 32 HOH HOH . M 8 HOH B 35 435 16 HOH HOH . M 8 HOH B 36 436 90 HOH HOH . M 8 HOH B 37 437 85 HOH HOH . M 8 HOH B 38 438 47 HOH HOH . M 8 HOH B 39 439 74 HOH HOH . M 8 HOH B 40 440 89 HOH HOH . M 8 HOH B 41 441 82 HOH HOH . M 8 HOH B 42 442 4 HOH HOH . M 8 HOH B 43 443 86 HOH HOH . M 8 HOH B 44 444 91 HOH HOH . M 8 HOH B 45 445 11 HOH HOH . M 8 HOH B 46 446 29 HOH HOH . M 8 HOH B 47 447 8 HOH HOH . M 8 HOH B 48 448 35 HOH HOH . M 8 HOH B 49 449 84 HOH HOH . M 8 HOH B 50 450 73 HOH HOH . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 EDO . . . H 7 14.117 -8.021 169.356 1 57.91 ? C1 EDO 401 A 1 HETATM 2 O O1 EDO . . . H 7 15.125 -8.108 168.333 1 60.5 ? O1 EDO 401 A 1 HETATM 3 C C2 EDO . . . H 7 13.323 -6.722 169.188 1 63.62 ? C2 EDO 401 A 1 HETATM 4 O O2 EDO . . . H 7 12.398 -6.778 168.077 1 61.96 ? O2 EDO 401 A 1 # _model_server_stats.io_time_ms 10 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 16 _model_server_stats.query_time_ms 221 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 4 #